HOMINID specifications

Unique identifier:
OMICS_14059
Software type:
Pipeline/Workflow
Restrictions to use:
None
Input format:
OTU/taxon table format, modified VCF file format
Output format:
VCF file format
Programming languages:
Python
Computer skills:
Advanced
Requirements:
mpi4py, numpy, pandas, SciPy, scikit-learn, scikits.bootstrap
Name:
HOst-Microbiome INteraction IDentification
Interface:
Command line interface
Input data:
Host genetic variation data, microbiome composition data
Output data:
Correlations between host genetic variation (SNPs) and microbiome taxonomic abundances
Operating system:
Unix/Linux, Mac OS, Windows
License:
MIT License
Stability:
Stable
Maintained:
Yes
  • Animals
    • Homo sapiens

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HOMINID distribution

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HOMINID support

Documentation

Maintainer

  • Ran Blekhman <>

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Publications

Institution(s)

Department of Genetics, Cell Biology, and Development, University of Minnesota, Minneapolis, MN, USA; Department of Ecology, Evolution, and Behavior, University of Minnesota, Minneapolis, MN, USA; Departments of Statistical Science, Mathematics, and Computer Science, Duke University, Durham, NC, USA; Department of Computer Science and Engineering, University of Minnesota, Minneapolis, MN, USA; Biotechnology Institute, University of Minnesota, Minneapolis, MN, USA

Funding source(s)

This work is supported in part by funds from the University of Minnesota College of Biological Sciences, The Randy Shaver Cancer Research and Community Fund, Institutional Research Grant #124166-IRG-58-001-55-IRG53 from the American Cancer Society, and a Research Fellowship from The Alfred P. Sloan Foundation. This work was facilitated in part by computational resources provided by the Minnesota Supercomputing Institute.

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